Shortly after the determination of the first protein x-ray crystal structures, researchers analyzed their cores and reported packing fractions ϕ≈0.75, a value that is similar to close packing of equal-sized spheres. ...
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Shortly after the determination of the first protein x-ray crystal structures, researchers analyzed their cores and reported packing fractions ϕ≈0.75, a value that is similar to close packing of equal-sized spheres. A limitation of these analyses was the use of extended atom models, rather than the more physically accurate explicit hydrogen model. The validity of the explicit hydrogen model was proved in our previous studies by its ability to predict the side chain dihedral angle distributions observed in proteins. In contrast, the extended atom model is not able to recapitulate the side chain dihedral angle distributions, and gives rise to large atomic clashes at side chain dihedral angle combinations that are highly probable in protein crystal structures. Here, we employ the explicit hydrogen model to calculate the packing fraction of the cores of over 200 high-resolution protein structures. We find that these protein cores have ϕ≈0.56, which is similar to results obtained from simulations of random packings of individual amino acids. This result provides a deeper understanding of the physical basis of protein structure that will enable predictions of the effects of amino acid mutations to protein cores and interfaces of known structure.
Correction for ‘Advanced anti-corrosion coatings prepared from α-zirconium phosphate/polyurethane nanocomposites’ by Tsao-Cheng Huang et al., RSC Adv., 2017, 7, 9908–9913.
Correction for ‘Advanced anti-corrosion coatings prepared from α-zirconium phosphate/polyurethane nanocomposites’ by Tsao-Cheng Huang et al., RSC Adv., 2017, 7, 9908–9913.
This work has as objective to produce and to characterize ceramic foams from glass bottles, sludge from sewage treatment station and graphite (0 - 10 wt%) as a foaming agent. Different compositions were formulated and...
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This work aims to study magnesium aluminate (MgAl2O4) ceramic foams obtained by combustion synthesis in solution without the need of surfactants to stabilize *** ceramic suspension containing acetone (75 wt%), calcine...
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In this work, glass compositions from glass bottles with different colours and graphite (2 - 12 vol%) as the pore-forming agent were prepared for the production of materials with controlled porosity for applications w...
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Human hair fibers in virgin and dyed forms were treated with atmospheric pressure helium, helium/oxygen, argon, and argon/oxygen plasma jets at 20 W of power. The effects of 10-min plasma treatment on surface mor...
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The impact and airborne sound transmission characteristics of interior wall and floor components in traditional timber-framed dwellings (Ankara, Turkey) were examined by in-situ acoustical measurements and simulation ...
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The ultimate goal of multiferroic research is the development of new-generation non-volatile memory devices1, the so-called magnetoelectric (ME) memories, where magnetic bits are controlled via electric fields without...
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